Detecting topologically associated domains from RNA-associated interactions

The example data comprises five files. One is the gene-chromatin interaction map of chr22 constructed from iMARGI HEK dataset. For Hi-C data, we collect the contact map of chr22 from Hi-C HEK293T dataset. To automatically determine the optimal scaling factor alpha or to evaluate the inferred TADs, we download the CTCF TF ChIP-seq peaks, the result of fold change over control of H3K27me3and H3K36me3.

The software SuperTAD-sparse (https://github.com/deepomicslab/SuperTAD-sparse_forRAI) can directly take the data as input.

Usage: uncompress the example_data.zip into the directory of ./data